Targets’ report corresponding to the functions that annotate any original expression matrix (with gene symbols as ids in rows, and sample ids in columns) and expands the annotated matrix to include the average (or sum) values for the annotations (as new extra rows)

## Loading required package: plotly
## 
## Attaching package: 'plotly'
## The following object is masked from 'package:ggplot2':
## 
##     last_plot
## The following object is masked from 'package:AnnotationDbi':
## 
##     select
## The following object is masked from 'package:IRanges':
## 
##     slice
## The following object is masked from 'package:S4Vectors':
## 
##     rename
## The following object is masked from 'package:stats':
## 
##     filter
## The following object is masked from 'package:graphics':
## 
##     layout
## Loading required package: viridis
## Loading required package: viridisLite
## 
## ======================
## Welcome to heatmaply version 1.2.1
## 
## Type citation('heatmaply') for how to cite the package.
## Type ?heatmaply for the main documentation.
## 
## The github page is: https://github.com/talgalili/heatmaply/
## Please submit your suggestions and bug-reports at: https://github.com/talgalili/heatmaply/issues
## Or contact: <tal.galili@gmail.com>
## ======================
## 
## Attaching package: 'heatmaply'
## The following object is masked from 'package:BiocGenerics':
## 
##     normalize

Raw data (before data prep)

Data loaded from files data/mrna.csv and data/prots.csv

Samples in rows; Features in columns

## # A tibble: 150 x 201
##    sample  RTN2 NDRG2 CCDC113 FAM63A ACADS  GMDS HLA.H SEMA4A  ETS2 LIMD2  NME3  ZEB1 CDCP1 GIYD2 RTKN2 MANSC1
##    <chr>  <dbl> <dbl>   <dbl>  <dbl> <dbl> <dbl> <dbl>  <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl>  <dbl>
##  1 A0FJ    4.36  7.53   3.96    4.46  2.26  6.02  5.01   3.22  4.73  5.10  4.56  3.99  6.42  2.47  4.58   8.08
##  2 A13E    1.98  7.46   5.43    5.44  4.03  4.34  6.18   2.86  5.41  4.21  5.14  3.76  6.61  4.98  5.17   7.30
##  3 A0G0    1.73  8.08   2.23    5.54  2.63  6.36  6.04   5.95  5.65  3.30  4.45  3.85  6.41  3.20  4.24   7.99
##  4 A0SX    4.36  5.79   3.54    4.74  4.27  4.00  7.09   5.01  5.90  5.48  3.76  5.23  6.02  4.30  4.25   5.41
##  5 A143    2.45  7.16   4.69    4.81  2.44  7.03  5.94   5.90  6.64  5.51  4.24  3.54  7.09  5.71  3.96   8.49
##  6 A0DA    4.77  8.75   4.31    5.31  3.24  4.24  6.91   6.59  5.86  3.77  4.26  4.80  6.05  4.01  2.07   5.90
##  7 A0B3    3.35  5.10   0.593   5.22  3.89  5.92  8.04   6.53  6.31  4.11  4.79  4.26  7.27  4.64  3.53   5.03
##  8 A0I2    1.81  3.79   2.72    4.36  4.20  4.83  9.13   4.98  5.30  5.15  5.76  2.46  3.79  6.90  1.91   6.39
##  9 A0RT    2.09  6.33   2.36    4.04  4.13  4.29  7.59   5.94  6.57  7.07  5.13  5.55  3.85  5.66  4.27   3.71
## 10 A131    4.34  4.70   3.64    4.03  3.14  5.25  6.35   6.06  6.32  4.89  5.73  4.52  6.57  5.42  3.36   5.74
## # ... with 140 more rows, and 184 more variables: TAGLN <dbl>, IFIT3 <dbl>, ARL4C <dbl>, HTRA1 <dbl>,
## #   KIF13B <dbl>, CPPED1 <dbl>, SKAP2 <dbl>, ASPM <dbl>, KDM4B <dbl>, TBXAS1 <dbl>, MT1X <dbl>, MED13L <dbl>,
## #   SNORA8 <dbl>, RGS1 <dbl>, CBX6 <dbl>, WWC2 <dbl>, TNFRSF12A <dbl>, ZNF552 <dbl>, MAPRE2 <dbl>,
## #   SEMA5A <dbl>, STAT5A <dbl>, FLI1 <dbl>, COL15A1 <dbl>, C7orf55 <dbl>, ASF1B <dbl>, FUT8 <dbl>,
## #   LASS4 <dbl>, SQLE <dbl>, GPC4 <dbl>, AKAP12 <dbl>, AGL <dbl>, ADAMTS4 <dbl>, EPHB3 <dbl>, MAP3K1 <dbl>,
## #   PRNP <dbl>, PROM2 <dbl>, SLCO3A1 <dbl>, SNHG1 <dbl>, PRKCDBP <dbl>, MXI1 <dbl>, CSF1R <dbl>, TANC2 <dbl>,
## #   SLC19A2 <dbl>, RHOU <dbl>, C4orf34 <dbl>, LRIG1 <dbl>, DOCK8 <dbl>, BOC <dbl>, C11orf52 <dbl>,
## #   S100A16 <dbl>, NRARP <dbl>, TTC23 <dbl>, TBC1D4 <dbl>, DEPDC6 <dbl>, ILDR1 <dbl>, SDC1 <dbl>, STC2 <dbl>,
## #   DTWD2 <dbl>, TCF4 <dbl>, ITPR2 <dbl>, DPYD <dbl>, NME1 <dbl>, EGLN3 <dbl>, CD302 <dbl>, AHR <dbl>,
## #   LAPTM4B <dbl>, OCLN <dbl>, HIST1H2BK <dbl>, HDAC11 <dbl>, C18orf1 <dbl>, C6orf192 <dbl>, AMPD3 <dbl>,
## #   COL6A1 <dbl>, RAB3IL1 <dbl>, APBB1IP <dbl>, PSIP1 <dbl>, EIF2AK2 <dbl>, CSRP2 <dbl>, EIF4EBP3 <dbl>,
## #   LYN <dbl>, WDR76 <dbl>, SAMD9L <dbl>, ASPH <dbl>, RBL1 <dbl>, SLC43A3 <dbl>, HN1 <dbl>, TTC39A <dbl>,
## #   MTL5 <dbl>, NES <dbl>, APOD <dbl>, RIN3 <dbl>, ALCAM <dbl>, C1orf38 <dbl>, PLCD3 <dbl>, BSPRY <dbl>,
## #   NTN4 <dbl>, IL1R1 <dbl>, EMP3 <dbl>, ZKSCAN1 <dbl>, FMNL2 <dbl>, ...
## # A tibble: 150 x 112
##    sample   YWHAE EIF4EBP1 TP53BP1    ARAF   ACACA    ACCB  PRKAA1     ANLN     AR ARID1A   ASNS     ATM
##    <chr>    <dbl>    <dbl>   <dbl>   <dbl>   <dbl>   <dbl>   <dbl>    <dbl>  <dbl>  <dbl>  <dbl>   <dbl>
##  1 A0FJ    0.0491   0.447   0.918   0.0227 -0.0863 -0.417   0.285   0.172   -1.31   0.505  0.811 -0.496 
##  2 A13E   -0.0800   0.605   0.0591 -0.460  -0.593  -0.0623 -0.275   0.222   -1.62   0.340  1.18  -0.276 
##  3 A0G0   -0.0328   0.895   0.517  -0.192   0.411   0.826   0.0677  0.122   -1.08   0.227  1.95   0.771 
##  4 A0SX   -0.205   -0.141  -0.314  -0.0748 -0.851  -0.663   0.0296  1.05    -1.27   0.355  0.607  0.781 
##  5 A143    0.0602   0.132   0.331  -0.0244  0.770   0.873  -0.217   0.0138  -0.601  0.544  0.539  0.0139
##  6 A0DA    0.0308   0.0330 -0.220   0.419  -0.714  -0.218  -0.0631  0.0603  -1.21  -0.111  0.312  0.0717
##  7 A0B3   -0.108   -0.0371 -0.545   0.431  -0.363  -0.269  -0.0776  0.00887 -1.02  -0.233  1.14  -0.210 
##  8 A0I2    0.650   -0.521  -1.60   -0.187   1.08    1.59   -0.0775 -0.0519  -0.421 -0.355 -0.633 -0.924 
##  9 A0RT   -0.0137  -0.635  -0.721  -0.375  -1.25   -0.901  -0.178  -0.0419  -0.952 -0.179  0.145  0.834 
## 10 A131    0.431    1.05   -0.811   0.353  -0.883  -0.681   0.261  -0.00213 -0.180 -0.475  0.573 -1.44  
## # ... with 140 more rows, and 99 more variables: AKT1 <dbl>, ANXA1 <dbl>, BRAF <dbl>, BAK1 <dbl>, BAX <dbl>,
## #   BCL2 <dbl>, BCLX <dbl>, BECN1 <dbl>, BID <dbl>, BCL2L11 <dbl>, RAF1 <dbl>, PECAM1 <dbl>, ITGA2 <dbl>,
## #   CDK1 <dbl>, CASP7 <dbl>, CAV1 <dbl>, CHEK1 <dbl>, CHEK2 <dbl>, CLDN7 <dbl>, COL6A1 <dbl>, CCNB1 <dbl>,
## #   CCND1 <dbl>, CCNE1 <dbl>, PARK7 <dbl>, DVL3 <dbl>, CDH1 <dbl>, EGFR <dbl>, ESR1 <dbl>, MAPK1 <dbl>,
## #   FOXO3 <dbl>, FN1 <dbl>, GAB2 <dbl>, GATA3 <dbl>, GSK3A <dbl>, ERBB2 <dbl>, ERBB3 <dbl>, HSPA1A <dbl>,
## #   IGFBP2 <dbl>, INPP4B <dbl>, IRS1 <dbl>, MAPK9 <dbl>, MAPK8 <dbl>, KRAS <dbl>, XRCC5 <dbl>, LCK <dbl>,
## #   MAPK1_1 <dbl>, MAP2K1 <dbl>, ERRFI1 <dbl>, MRE11 <dbl>, CDH2 <dbl>, NF2 <dbl>, NOTCH1 <dbl>, CDH3 <dbl>,
## #   SERPINE1 <dbl>, PCNA <dbl>, PDCD4 <dbl>, PDK1 <dbl>, PRKCA <dbl>, PRKCD <dbl>, PGR <dbl>, AKT1S1 <dbl>,
## #   PRDX1 <dbl>, PTEN <dbl>, PXN <dbl>, PEA15 <dbl>, RBM3 <dbl>, RAD50 <dbl>, RB1 <dbl>, CD1E <dbl>,
## #   STAT3 <dbl>, STAT5A <dbl>, SHC1 <dbl>, SMAD1 <dbl>, SMAD3 <dbl>, SMAD4 <dbl>, SRC <dbl>, STMN1 <dbl>,
## #   SYK <dbl>, TGM1 <dbl>, TSC2 <dbl>, KDR <dbl>, XBP1 <dbl>, XRCC1 <dbl>, YAP1 <dbl>, YBX1 <dbl>,
## #   CTNNA1 <dbl>, CTNNB1 <dbl>, KIT <dbl>, MET <dbl>, MYC <dbl>, EEF2 <dbl>, EEF2K <dbl>, EIF4E <dbl>,
## #   MTOR <dbl>, CDKN1B <dbl>, MAPK14 <dbl>, TP53 <dbl>, RPS6KB1 <dbl>, RPS6KA1 <dbl>

Data frame (before annotation)

Input from data/mrna.csv: Features in ROWS: 200 Samples in COLUMNS: 150

Input from data/prots.csv: Features in ROWS: 111 Samples in COLUMNS: 150

(Showing only partial output)

tar_read(dframe1)[1:10,1:10]
##             A0FJ     A13E     A0G0     A0SX     A143     A0DA      A0B3     A0I2     A0RT     A131
## RTN2    4.362183 1.984492 1.727323 4.363996 2.447562 4.770798 3.3520618 1.810382 2.094460 4.340912
## NDRG2   7.533461 7.455194 8.079968 5.793750 7.158993 8.748061 5.0984040 3.791965 6.327973 4.699950
## CCDC113 3.956124 5.427623 2.227300 3.544866 4.691256 4.305401 0.5932056 2.719169 2.357933 3.639056
## FAM63A  4.457170 5.440957 5.543480 4.737114 4.808728 5.307480 5.2175851 4.355919 4.041661 4.030187
## ACADS   2.256817 4.028813 2.629855 4.269101 2.442135 3.239909 3.8851534 4.200249 4.126817 3.135697
## GMDS    6.017940 4.341692 6.363030 4.001104 7.029723 4.236539 5.9178858 4.830286 4.292798 5.251649
## HLA.H   5.006907 6.178668 6.039563 7.087633 5.936138 6.909727 8.0433411 9.130370 7.591606 6.349572
## SEMA4A  3.217812 2.864659 5.946028 5.007565 5.901459 6.591109 6.5328925 4.982386 5.941057 6.055191
## ETS2    4.734446 5.411029 5.651670 5.902449 6.641225 5.858016 6.3091167 5.304488 6.571389 6.317800
## LIMD2   5.099598 4.211397 3.304513 5.479451 5.508654 3.766283 4.1138727 5.149344 7.071896 4.885183
tar_read(dframe2)[1:10,1:10]
##                 A0FJ        A13E        A0G0        A0SX        A143        A0DA         A0B3        A0I2
## YWHAE     0.04913078 -0.07998211 -0.03284989 -0.20532949  0.06019021  0.03076171 -0.107861537  0.64984396
## EIF4EBP1  0.44748623  0.60521842  0.89460973 -0.14132292  0.13176899  0.03299680 -0.037124691 -0.52148657
## TP53BP1   0.91783419  0.05910121  0.51704453 -0.31372867  0.33091238 -0.22027100 -0.544743061 -1.60203535
## ARAF      0.02274147 -0.45985298 -0.19182192 -0.07482347 -0.02435747  0.41861665  0.430503500 -0.18714658
## ACACA    -0.08626782 -0.59269183  0.41117190 -0.85148060  0.76975143 -0.71430870 -0.363474049  1.07761482
## ACCB     -0.41662442 -0.06226840  0.82582859 -0.66341044  0.87347870 -0.21752677 -0.269313837  1.58998239
## PRKAA1    0.28527039 -0.27523360  0.06774184  0.02956373 -0.21653182 -0.06306506 -0.077581092 -0.07753959
## ANLN      0.17231110  0.22210598  0.12199399  1.05494810  0.01378422  0.06025690  0.008872461 -0.05187936
## AR       -1.30760569 -1.62047596 -1.07789444 -1.26705469 -0.60132744 -1.20803848 -1.016297633 -0.42122691
## ARID1A    0.50509449  0.33958160  0.22718066  0.35529767  0.54412514 -0.11094480 -0.233223615 -0.35537533
##                 A0RT         A131
## YWHAE    -0.01365044  0.430934243
## EIF4EBP1 -0.63485063  1.052571622
## TP53BP1  -0.72072329 -0.811335319
## ARAF     -0.37488300  0.353262354
## ACACA    -1.25449108 -0.883296744
## ACCB     -0.90135358 -0.681364747
## PRKAA1   -0.17763665  0.261182525
## ANLN     -0.04188024 -0.002134606
## AR       -0.95232486 -0.180283541
## ARID1A   -0.17919526 -0.474665632

Heatmaps (before annotation)

Features in ROWS; Samples in COLUMNS

Heatmaply

p <- heatmaply(data.matrix(dframe1), 
        #dendrogram = "row",
        xlab = "", ylab = "", 
        main = "",
        scale = "none",
        margins = c(60,100,40,20),
        #grid_color = "white",
        #grid_width = 0,
        titleX = FALSE,
        hide_colorbar = FALSE,
        branches_lwd = 0.1,
        label_names = c("Feature", "Sample", "Value"),
        fontsize_row = 5, fontsize_col = 5,
        labCol = colnames(data.matrix(dframe1)),
        labRow = rownames(data.matrix(dframe1)),
        heatmap_layers = theme(axis.line=element_blank())
        )
p
# save the widget
# library(htmlwidgets)
# saveWidget(p, file= "~/.../heatmap.html")
p <- heatmaply(data.matrix(dframe2), 
        #dendrogram = "row",
        xlab = "", ylab = "", 
        main = "",
        scale = "none",
        margins = c(60,100,40,20),
        #grid_color = "white",
        #grid_width = 0,
        titleX = FALSE,
        hide_colorbar = FALSE,
        branches_lwd = 0.1,
        label_names = c("Feature", "Sample", "Value"),
        fontsize_row = 5, fontsize_col = 5,
        labCol = colnames(data.matrix(dframe2)),
        labRow = rownames(data.matrix(dframe2)),
        heatmap_layers = theme(axis.line=element_blank())
        )
p
# save the widget
# library(htmlwidgets)
# saveWidget(p, file= "~/.../heatmap.html")

Annotated Matrix

Gene Ontology used: BP

Min. number of genes required to pass the filter: 8

Annotated categories: 13 (for data/mrna.csv)

Annotated categories: 61 (for data/prots.csv)

tar_read(categ_sums1)
## GO:0000122 GO:0006357 GO:0007155 GO:0007165 GO:0007411 GO:0008285 GO:0016477 GO:0019221 GO:0030335 GO:0043312 
##         11         14         11         21         10          9         10         10          8          8 
## GO:0045893 GO:0045944 GO:0055114 
##         11         14         10
tar_read(categ_sums2)
## GO:0000082 GO:0000122 GO:0000165 GO:0000187 GO:0001525 GO:0001666 GO:0001701 GO:0001934 GO:0006357 GO:0006367 
##          8         19         17          8         11          9         10         10         13         10 
## GO:0006468 GO:0006915 GO:0006974 GO:0006977 GO:0007050 GO:0007155 GO:0007165 GO:0007169 GO:0007411 GO:0007507 
##         24         17         14          8         10         11         30         11          8         12 
## GO:0007568 GO:0008283 GO:0008284 GO:0008285 GO:0010468 GO:0010628 GO:0010629 GO:0016032 GO:0016579 GO:0018105 
##         10         12         20         16          8         29         12         19         11         16 
## GO:0018107 GO:0018108 GO:0019221 GO:0030154 GO:0030335 GO:0032355 GO:0032869 GO:0033138 GO:0033674 GO:0035556 
##         11         11         15         11         11         10          9          9          8         17 
## GO:0042060 GO:0042127 GO:0042493 GO:0042981 GO:0043065 GO:0043066 GO:0045471 GO:0045892 GO:0045893 GO:0045944 
##          9          9         23         10         11         31          8         11         23         30 
## GO:0046777 GO:0048538 GO:0050821 GO:0051091 GO:0051897 GO:0070374 GO:0071456 GO:0090090 GO:0098609 GO:1901796 
##         10          8          8          8         12          9         11          8          9          9 
## GO:2001244 
##          8

Features in ROWS: 200 (for data/mrna.csv)

Features in ROWS: 111 (for data/prots.csv)

Samples+Categs in COLUMNS: 163 (for data/mrna.csv)

Samples+Categs in COLUMNS: 211 (for data/prots.csv)

(Showing only partial output)

head(tar_read(annot_matrix1))
##             A0FJ     A13E     A0G0     A0SX     A143     A0DA      A0B3     A0I2     A0RT     A131     A124
## RTN2    4.362183 1.984492 1.727323 4.363996 2.447562 4.770798 3.3520618 1.810382 2.094460 4.340912 1.206280
## NDRG2   7.533461 7.455194 8.079968 5.793750 7.158993 8.748061 5.0984040 3.791965 6.327973 4.699950 8.676364
## CCDC113 3.956124 5.427623 2.227300 3.544866 4.691256 4.305401 0.5932056 2.719169 2.357933 3.639056 3.753526
## FAM63A  4.457170 5.440957 5.543480 4.737114 4.808728 5.307480 5.2175851 4.355919 4.041661 4.030187 5.193696
## ACADS   2.256817 4.028813 2.629855 4.269101 2.442135 3.239909 3.8851534 4.200249 4.126817 3.135697 2.789757
## GMDS    6.017940 4.341692 6.363030 4.001104 7.029723 4.236539 5.9178858 4.830286 4.292798 5.251649 5.610192
##             A1B6     A1AZ     A0YM     A04P     A04T     A0AT      A0AL     A0CE     A07R      A0FL     A150
## RTN2    2.846980 1.222353 1.892681 2.293955 1.090914 2.534021 2.4179929 1.763550 3.280434  6.142850 2.308591
## NDRG2   7.790635 4.730645 6.332405 7.827413 7.436516 6.961400 8.8336442 6.544614 6.875960 10.260165 5.887077
## CCDC113 3.060775 4.506151 3.208926 1.881223 3.664815 3.319350 0.2849741 4.309775 2.222412  1.441558 3.790442
## FAM63A  3.819955 4.464141 4.559118 3.709155 5.139812 3.491093 4.6556456 5.179804 5.368074  5.961550 4.274774
## ACADS   4.125045 3.028432 3.393146 2.456713 2.409692 1.834359 4.2644283 3.688115 3.009596  3.850541 3.018863
## GMDS    5.601640 4.144106 4.708556 6.716958 5.173432 5.728591 5.7582700 5.420492 4.877815  6.642912 5.163194
##              A0E0     A0U4     A0XU     A0AV     A0AR     A0RX     A0D2     A0CM     A0WX     A0T0     A0T2
## RTN2    0.6743217 2.218695 3.320557 3.690360 2.910988 2.179577 1.965177 1.903714 3.070428 2.360129 3.620557
## NDRG2   4.5619890 7.385044 7.341238 5.753302 9.515500 7.047445 6.725903 4.983993 6.789360 9.155272 7.013197
## CCDC113 2.2716035 4.860181 4.620859 2.898493 2.883201 3.553867 1.249060 1.779161 4.790587 4.160914 3.172523
## FAM63A  6.0971133 3.800083 4.955763 5.765022 4.940644 4.360755 3.873571 4.664145 4.569566 4.872187 4.834117
## ACADS   4.3603055 3.454774 2.629412 2.778064 4.266805 3.867138 2.698221 1.556919 3.506256 2.350685 4.589873
## GMDS    4.4246369 5.455150 5.699021 4.910252 7.105627 4.995109 5.584181 4.981640 4.736113 4.825226 5.816029
##             A04U     A0JL     A147     A0B9      A1AI     A14X     A12V     A1AY     A0D0     A0SK     A128
## RTN2    1.384660 3.243859 3.505726 2.650759 0.3327526 3.628534 2.813715 3.497809 1.949481 4.794359 1.957013
## NDRG2   8.911393 9.339442 7.000853 7.243034 7.5131668 8.894409 8.556629 5.543856 4.910012 4.484965 3.858092
## CCDC113 1.412959 3.440030 3.978750 3.947715 4.1002872 2.966176 2.243080 4.186226 3.734065 3.500417 4.236216
## FAM63A  3.002935 4.850530 5.789872 4.526164 4.4563209 6.017519 4.719815 5.140818 2.203462 4.008493 1.840127
## ACADS   4.236686 3.006019 2.561543 3.478710 2.1922975 3.740005 3.446792 3.021059 3.308981 3.099769 3.204864
## GMDS    4.715617 5.033427 3.392365 4.530231 5.4230176 6.103145 4.414810 5.021890 4.402124 3.941773 5.958135
##             A04D     A0A7     A094     A12L     A0I9      A0EE     A135     A152     A18P     A18R     A08X
## RTN2    3.264143 3.630609 3.838779 2.836670 4.724076 0.6962941 1.819296 1.986657 3.475001 4.354183 3.733788
## NDRG2   9.645246 5.026081 5.260215 3.344884 4.503244 5.8202163 5.403551 4.999541 4.823776 6.402254 4.675284
## CCDC113 3.930012 2.450502 1.773722 5.404862 4.622169 3.1173445 4.118666 3.577636 4.374714 3.983280 3.294215
## FAM63A  5.762041 3.948055 3.928293 5.957079 5.570075 3.9983956 4.021509 5.645919 5.640225 4.190554 3.351270
## ACADS   3.045266 3.193824 4.305221 3.095219 4.583606 3.0785379 2.832452 2.867549 3.070213 5.606610 3.359589
## GMDS    5.038067 4.443301 5.812546 5.134322 4.819258 6.7714094 3.013772 3.917772 3.582233 2.518043 4.138523
##             A0TX     A09X     A1AT     A12Q     A12T     A0RH     A07I     A04W     A12P     A0EQ      A0D1
## RTN2    2.931286 1.973935 4.178227 2.454749 3.360365 3.105367 3.843009 2.413193 4.780633 2.043937 2.8101153
## NDRG2   6.297263 4.741524 4.883940 4.679603 3.993496 4.467796 3.360024 5.915364 3.728883 4.451327 5.8398955
## CCDC113 4.381832 1.385884 4.041319 5.460908 4.168762 3.280249 5.273710 4.304850 3.611869 3.922623 3.8977020
## FAM63A  4.210461 2.777252 5.143692 7.478075 4.102186 5.490180 6.218413 4.735519 5.428217 3.733726 4.5425832
## ACADS   3.222013 2.480992 2.690258 3.902902 3.739438 3.791578 1.207714 2.316943 4.292261 2.387349 0.8715574
## GMDS    4.649420 4.547114 4.445286 5.259775 4.632893 4.769685 5.248546 5.203775 2.470152 3.986822 6.0863133
##             A09G     A1B0     A14P     A0T1      A137     A13Z     A08L     A0IK     A12D     A0XN     A0B0
## RTN2    4.336523 2.460993 2.725320 3.987558 3.3557342 3.858600 3.683918 3.805449 4.913829 3.854908 2.937087
## NDRG2   5.890453 3.328238 4.519024 5.339332 4.1665630 5.779159 6.035885 5.045742 5.362417 4.280310 6.399544
## CCDC113 3.385647 5.015205 7.685072 4.294984 3.7349053 2.925652 4.962329 3.799215 4.361665 3.073338 3.187451
## FAM63A  4.905487 4.009917 3.683882 3.896515 4.7856232 4.552264 5.417161 4.361230 4.103027 4.575127 6.084497
## ACADS   3.521845 3.758492 3.220628 3.483945 0.9475664 1.905945 2.902085 2.096262 2.865018 2.541062 4.087720
## GMDS    5.095428 5.425335 5.134124 5.515992 4.2281563 6.193263 5.167644 6.601120 5.207890 3.069358 3.896811
##             A18S     A0CS     A0EI     A0IO     A0T6     A1AU     A07Z     A0XS     A1BD     A08T     A12Y
## RTN2    4.885975 4.812521 4.145511 4.770780 3.686174 4.234722 4.668950 5.163421 5.862224 4.492575 3.451556
## NDRG2   5.190614 5.481586 4.209690 4.894866 5.714241 6.655277 5.074468 5.716168 6.367080 5.924680 4.315363
## CCDC113 5.981202 4.514267 4.871415 4.923091 3.999832 4.978289 4.836763 3.099718 4.402046 3.565575 3.035121
## FAM63A  6.839739 5.960769 5.562853 5.903991 5.543870 5.967937 7.315990 5.370638 7.073223 6.133809 6.137805
## ACADS   3.807709 5.826708 3.213199 4.201494 3.211621 4.088356 6.577862 4.426710 4.262734 4.193605 3.455379
## GMDS    4.467859 4.661853 3.977644 4.568149 3.908653 3.413226 3.640991 3.483881 2.866784 5.025717 5.219259
##             A0J5     A18F     A0AS     A0DV     A140     A0SU     A12A     A0RM     A0AZ     A0EW     A0XW
## RTN2    3.324178 3.699449 3.147610 4.551102 3.371083 5.279948 4.599786 4.961715 4.395032 3.669192 4.060707
## NDRG2   5.204543 6.743026 3.310945 6.751697 4.767956 6.742996 6.767056 7.121645 6.166074 7.481286 3.993213
## CCDC113 3.658085 3.213309 3.392015 3.561305 4.266360 4.197921 3.613720 2.031879 4.705795 3.912063 3.859653
## FAM63A  6.019478 6.467441 3.583159 5.693453 7.680580 5.517610 6.374306 6.552616 5.685660 5.385438 5.234679
## ACADS   4.348268 3.839791 2.573175 4.361170 4.958535 3.757448 3.926513 5.375324 3.461114 4.981446 2.939582
## GMDS    2.901918 3.613409 4.553301 4.581463 2.306479 3.604445 4.316497 3.573679 3.908730 4.028187 4.368607
##             A12B     A0BP     A0RG     A0T7     A08A     A0DK     A0SH     A18N     A06P     A15L     A0YL
## RTN2    4.955273 3.946813 5.161843 3.628120 5.319757 4.229001 4.549374 5.160065 4.418414 3.003667 4.394415
## NDRG2   6.554334 6.110317 5.282558 7.041361 5.670118 6.234561 5.734280 5.743608 5.550527 5.638583 7.329557
## CCDC113 3.729381 3.599571 3.652475 4.567336 4.213460 2.876254 3.266107 3.799948 3.408737 3.767432 4.225351
## FAM63A  7.175329 5.866863 6.740858 4.849512 6.421754 6.278993 4.586105 6.548107 6.284064 5.833073 5.909271
## ACADS   3.771734 4.873476 3.834633 5.031143 6.435726 3.401421 3.781805 5.203101 4.189855 1.428122 4.124782
## GMDS    4.924317 3.476359 4.232467 3.994755 4.211985 4.533902 4.445566 3.016115 4.291386 4.561102 4.448572
##             A1AL     A133     A086     A0I8     A0EA     A09A     A0DS     A1B1     A0X0     A1AP     A0W5
## RTN2    4.318402 4.567727 3.380619 3.591457 3.934620 3.534916 5.337452 3.156414 4.318445 4.434544 4.053462
## NDRG2   7.671057 5.631257 5.348448 6.711921 6.485034 5.598355 5.431434 6.889978 5.134913 4.996163 6.324229
## CCDC113 4.058701 4.856185 2.812439 4.245995 4.373684 4.435664 3.569027 4.403957 4.249242 3.360406 4.206724
## FAM63A  6.332046 6.715817 5.614007 6.305527 6.607800 6.053269 6.544494 4.557049 6.261542 7.132167 5.686577
## ACADS   3.830086 3.637716 3.446198 3.597418 5.298255 3.821643 3.157999 3.427855 4.405081 2.979350 3.717058
## GMDS    3.988674 4.967355 3.844804 3.978552 3.381281 4.133674 3.789697 4.472276 4.407352 3.292519 4.446478
##             A0JF     A1AV     A0RO     A08Z     A0RV     A0DP     A0EX     A15R     A0FD     A0ES     A0BM
## RTN2    4.255694 4.976229 3.593910 3.338102 4.312011 4.391099 4.971500 5.829543 5.114808 4.491791 3.854894
## NDRG2   6.107624 4.682798 6.831737 4.578062 6.562096 6.629841 6.442082 6.122818 5.004968 7.224767 7.563725
## CCDC113 3.566409 5.538055 5.843992 4.027111 3.146601 4.792597 3.858766 4.058642 4.246867 4.211227 3.714711
## FAM63A  5.823695 6.984005 5.434283 5.675758 6.527390 6.071293 5.216955 6.802337 5.049330 5.603656 4.972501
## ACADS   4.724552 5.848000 1.918908 3.367570 3.087441 4.333238 3.814054 3.339114 3.457678 3.962619 4.167155
## GMDS    4.618498 5.651612 4.426422 5.717837 4.689314 4.153339 4.377855 2.615647 3.599680 4.249810 4.587572
##             A0EU     A12X     A146     A0CD     A0BQ     A04A     A0CT     A0TZ     A03L     A1AK     A0E1
## RTN2    2.760552 3.285527 2.181406 4.831567 4.930042 3.897918 5.226293 1.560674 3.682643 4.174028 3.240652
## NDRG2   4.972966 6.049840 5.570016 4.273907 6.153962 4.727599 6.574909 4.528818 4.927297 6.933249 6.032330
## CCDC113 3.250293 5.094973 4.711167 3.816242 4.304354 3.633439 1.783738 3.897716 4.111116 4.353695 3.004524
## FAM63A  5.821183 6.752349 6.352394 5.779353 6.357639 6.226870 5.881396 5.792156 4.983386 6.927104 6.454520
## ACADS   4.197412 4.716806 2.759397 5.127855 3.385413 1.853465 3.108414 3.464086 2.941760 4.921953 4.474807
## GMDS    3.129062 4.634938 3.824802 5.385437 4.917877 3.285392 1.983430 2.888763 4.328807 2.646618 5.919961
##             A0H7     A0FS     A0BS     A08O     A12H     A15E     A0W4 GO:0000122 GO:0006357 GO:0007155
## RTN2    4.286326 4.728350 3.139900 4.346977 3.287485 4.684112 4.294419          0          0          0
## NDRG2   6.206116 6.857311 6.222359 5.708690 5.043387 6.274357 5.236494          0          0          0
## CCDC113 3.897574 3.088589 4.306467 3.995944 3.665758 4.599318 4.310629          0          0          0
## FAM63A  5.390505 6.047637 6.912236 6.189790 5.943128 5.335620 5.955053          0          0          0
## ACADS   1.802260 5.754979 5.317992 4.488860 4.823124 4.247261 4.631673          0          0          0
## GMDS    3.603636 3.581223 4.686750 3.186237 5.077987 3.627571 4.648448          0          0          0
##         GO:0007165 GO:0007411 GO:0008285 GO:0016477 GO:0019221 GO:0030335 GO:0043312 GO:0045893 GO:0045944
## RTN2             0          0          0          0          0          0          0          0          0
## NDRG2            1          0          0          0          0          0          0          0          0
## CCDC113          0          0          0          0          0          0          0          0          0
## FAM63A           0          0          0          0          0          0          0          0          0
## ACADS            0          0          0          0          0          0          0          0          0
## GMDS             0          0          0          0          0          0          0          0          0
##         GO:0055114
## RTN2             0
## NDRG2            0
## CCDC113          0
## FAM63A           0
## ACADS            0
## GMDS             0
head(tar_read(annot_matrix2))
##                 A0FJ        A13E        A0G0        A0SX        A143        A0DA        A0B3       A0I2
## YWHAE     0.04913078 -0.07998211 -0.03284989 -0.20532949  0.06019021  0.03076171 -0.10786154  0.6498440
## EIF4EBP1  0.44748623  0.60521842  0.89460973 -0.14132292  0.13176899  0.03299680 -0.03712469 -0.5214866
## TP53BP1   0.91783419  0.05910121  0.51704453 -0.31372867  0.33091238 -0.22027100 -0.54474306 -1.6020354
## ARAF      0.02274147 -0.45985298 -0.19182192 -0.07482347 -0.02435747  0.41861665  0.43050350 -0.1871466
## ACACA    -0.08626782 -0.59269183  0.41117190 -0.85148060  0.76975143 -0.71430870 -0.36347405  1.0776148
## ACCB     -0.41662442 -0.06226840  0.82582859 -0.66341044  0.87347870 -0.21752677 -0.26931384  1.5899824
##                 A0RT       A131         A124        A1B6        A1AZ        A0YM        A04P        A04T
## YWHAE    -0.01365044  0.4309342 -0.102577549  0.15423052 -0.05039163  0.06663868  0.07178029 -0.12609547
## EIF4EBP1 -0.63485063  1.0525716 -0.009255264 -0.39660615  1.12550091  1.54959594 -0.14261441  0.79519820
## TP53BP1  -0.72072329 -0.8113353 -0.681091817 -0.34914824  0.24034940 -0.17552648  0.01601470  0.20713236
## ARAF     -0.37488300  0.3532624  0.070807204 -0.22111950 -0.08041112 -0.44448272  0.27759824  0.05686482
## ACACA    -1.25449108 -0.8832967  0.484237104 -0.25114128  0.07222233 -0.19200311 -0.15725206 -0.67267960
## ACCB     -0.90135358 -0.6813647  0.045396912 -0.03205812  0.33437025  0.15785199  0.07170919 -0.21057209
##                 A0AT        A0AL         A0CE          A07R        A0FL        A150        A0E0       A0U4
## YWHAE    -0.03510511  0.02031388  0.006496486  1.022935e-02 -0.02361313 -0.17057438  0.12826354  0.4117473
## EIF4EBP1  0.08817975 -0.04429098 -0.069721010 -3.997427e-05  0.91845032  0.10651340 -0.10974424  1.2536159
## TP53BP1  -0.45684808 -0.31573883  0.650410261 -8.598333e-02 -0.50578279 -0.08917507 -0.05900489 -1.1088154
## ARAF      0.07382528 -0.31804237  0.645008667  5.492385e-01  0.38690508  0.42446259  0.05793049  0.1843648
## ACACA    -0.10844835 -0.01201742  0.159326402 -7.381441e-01 -0.21117641 -0.86165684  0.28663889 -0.9652205
## ACCB     -0.20688548  0.08417570  0.359152694 -3.718771e-01 -0.02620671 -0.45189197  0.62803284 -1.1004647
##                 A0XU        A0AV       A0AR       A0RX        A0D2        A0CM       A0WX        A0T0
## YWHAE     0.07403159  0.40683769 0.17772191  0.6671865  0.07213385 -0.17250159  0.2084185 -0.16337411
## EIF4EBP1 -0.10294224 -0.04816999 0.77350218 -0.4982787  0.67030375  0.57317523 -0.1383251 -0.09672684
## TP53BP1  -0.09666688 -0.65666480 0.10875114 -0.7914337 -0.47039823  0.21967364 -0.4942531 -0.42736982
## ARAF      0.06907737 -0.30181209 0.03544246 -0.4584311 -0.11735984  0.05736489  0.1126964  0.35266129
## ACACA    -0.11755679 -0.66413755 0.23931506 -0.9456168 -0.55918956 -0.21882664 -0.8601565  0.41070905
## ACCB     -0.32518868 -0.01413711 0.69474633 -0.3431517 -0.38162147 -0.06093574 -0.4941083  0.83089602
##                 A0T2        A04U       A0JL       A147        A0B9          A1AI        A14X        A12V
## YWHAE    -0.08703159 -0.02779448 -0.2221881 -0.3602582 -0.09746623 -9.038032e-05 -0.02915253 -0.07256821
## EIF4EBP1  0.61464819  0.54281880 -0.7263554  0.2963119  0.28115435  6.590760e-01 -0.41394946  0.14103431
## TP53BP1   0.23084921  0.80963266 -0.1094235  0.1195848  1.03754786  2.063061e-01 -0.71435019 -0.17953619
## ARAF      0.34148365  0.08032620  0.1304061 -0.1486517 -0.03110734  2.986835e-01 -0.36875294 -0.06853516
## ACACA     0.19232127 -0.37590016 -0.2573800 -1.0008629 -0.60781361  2.406539e-01 -1.25448790 -1.09497374
## ACCB      0.60823231 -0.23683087 -0.0209081 -0.6103342  0.03623308  2.013784e-01 -0.79260646 -0.71765484
##                  A1AY       A0D0         A0SK       A128         A04D       A0A7        A094        A12L
## YWHAE    -0.054829765  0.3824269  0.218651975  0.3324081 -0.205548154 -0.1596453 -0.32473305 -0.04344412
## EIF4EBP1  0.007807898  0.6180407  2.348937988  0.5065296 -0.147643395 -0.2242469  0.21593275  0.38455441
## TP53BP1  -0.075287155 -0.4270996  0.005416753 -0.9711423 -0.103927214 -1.1624485 -0.05943466 -0.33648846
## ARAF      0.158501500  0.1395464 -0.068234716  0.1938066  0.006738975  0.1554911  0.49079943  0.41502360
## ACACA    -0.685292020  0.3183916 -0.850736831 -0.9275520  0.111768841 -0.1522872  1.20535055  2.07303645
## ACCB     -0.180017897 -0.3105551 -0.781911026 -1.2740621  0.357749529 -0.3142226  1.48913627  1.82543036
##                 A0I9        A0EE       A135        A152        A18P       A18R         A08X        A0TX
## YWHAE    -0.13519444  0.20855357  0.1863144 -0.35902507 -0.10696223 -0.2053096  0.009604319  0.08891257
## EIF4EBP1 -0.33349040  0.05042412 -0.6957235  0.01114068 -0.29567957  0.1540785 -0.470798283 -0.52618047
## TP53BP1  -1.24733195 -0.15774083 -0.7811252  0.03480274  1.31010433  0.2687635 -0.529870879 -0.90594068
## ARAF      0.05777585  0.51301280 -0.2032814  0.17485319 -0.04975128  0.2218992 -0.010156351  0.47239815
## ACACA     2.20804740 -0.56615145  0.2090943 -0.62119053 -0.54414221  0.1147792 -0.762491820 -0.31338439
## ACCB      2.68643899 -0.57719372  0.4523723 -0.37231047 -0.08379475  0.6008600 -0.447065964 -0.69991211
##                A09X       A1AT        A12Q        A12T        A0RH        A07I        A04W        A12P
## YWHAE    -0.1452121 -0.2137481 -0.02665069  0.02448898  0.05336191 -0.16575908  0.01732674 -0.02834328
## EIF4EBP1  0.9133893 -0.2933581  0.27107573  0.31906683 -0.46378954 -0.44816287  0.39216603  0.74462774
## TP53BP1  -0.4881384  0.4174163  0.43851075 -0.65194847 -1.41979235  0.02476909 -0.16114981 -0.11724732
## ARAF      1.0728245 -0.1423640 -0.27802677  0.03342477 -0.01921547  0.09001330  0.43137927 -0.02968595
## ACACA     1.5325083  0.5937637  1.03762278  0.32105385 -1.00276346  1.25877264  0.23361773  0.78195934
## ACCB      1.5711548  0.2055559  1.08066133 -0.08252071 -0.57105951  1.41782931 -0.19130685  0.69284338
##                 A0EQ        A0D1        A09G        A1B0        A14P        A0T1        A137        A13Z
## YWHAE    -0.01786035 -0.08492728 -0.19168728  0.21474769 -0.05799150 -0.21747907 -0.08803255  0.04933478
## EIF4EBP1 -0.24529946  1.24934075  0.06083982  0.05885925  0.47517735 -0.18302393  1.10231628  0.97598320
## TP53BP1  -0.26047282  0.38597603 -0.16245628 -0.74753567 -0.09938019  0.04312771  0.10440564  0.43356778
## ARAF     -0.24564903  0.02061657  0.14395121  0.06822545 -0.40126092  0.30801515 -0.14032776  0.19165835
## ACACA    -0.01749434 -0.95814121  1.19739063 -0.54739970 -0.39300372  1.32309400  0.37771145  0.14075020
## ACCB      0.27193951 -0.56385715  1.30890455 -0.14094375 -0.59616259  1.74511280  0.30831068 -0.06501095
##                 A08L        A0IK        A12D       A0XN        A0B0       A18S         A0CS        A0EI
## YWHAE    -0.30622577  0.49932334 -0.16633329  0.2645818  0.16583752 -0.1594390 -0.022463404  0.14154974
## EIF4EBP1 -0.05871105 -0.31424236 -0.25664719  0.9454482 -0.62007726  0.7811332  0.097860488  0.79883067
## TP53BP1  -0.19369904 -1.26675743  0.03191129 -0.2737528  0.08543817  0.6475790 -0.001748506  0.09620899
## ARAF      0.19365136 -0.03038972 -0.12319996 -0.3084782  0.11688457  0.1303308  0.334964464 -0.09385336
## ACACA     0.15529593 -1.57896525 -0.15933744 -0.2625758 -0.03561580  0.2899688  0.749944295 -1.21085371
## ACCB      0.52746407 -1.01851966 -0.38789434 -0.3747893  0.35980241  0.8081174  0.981050852 -0.77786324
##                 A0IO        A0T6        A1AU       A07Z        A0XS       A1BD        A08T         A12Y
## YWHAE     0.08642076  0.10550155  0.37996457 -0.4678713  0.08678585 -0.1289187 -0.07846243 -0.139624632
## EIF4EBP1 -0.65464641  0.18094438  0.33115039 -0.6534718 -0.62969677 -0.2848388  0.15330913 -0.155897261
## TP53BP1   0.24605366  0.19713456 -0.09354243  0.3289483 -0.03750029  0.5523604  0.29559472  0.280028069
## ARAF     -0.12354224 -0.34896948 -0.55963733  0.1544671  0.04171820  0.1172685  0.14778960  0.002036919
## ACACA    -0.17369193 -0.28008209  0.77103294  2.2279160 -1.07151387 -0.0161823 -0.43791724  0.150767232
## ACCB     -0.55539035 -0.05912806  0.03904519  2.4836557 -0.66809161  0.2107903 -0.30475747  0.198280480
##                 A0J5        A18F        A0AS        A0DV        A140        A0SU         A12A        A0RM
## YWHAE    -0.21552677  0.09568197 -0.04635576  0.45259573 -0.19219433  0.02704793 -0.152233346  0.07891276
## EIF4EBP1 -0.60762880 -0.12126500 -0.19201165 -0.28018656 -0.38325583 -0.13660724 -0.229133813  0.26233805
## TP53BP1  -0.05888632 -0.26453804  0.17448861 -0.27528775 -0.03076983  0.15716694  0.262321295 -0.19091957
## ARAF      0.46568117 -0.02355888 -0.08826188 -0.08613218  0.01456160 -0.04209240  0.003812493 -0.49300086
## ACACA    -0.72991851 -0.03039667  0.89393507 -0.51919125  0.92510859  0.45384257 -0.688932842 -0.63912745
## ACCB     -0.62076963 -0.13891954  0.91059564 -0.69367323  1.20033224  0.30185448 -0.261832300 -0.32742498
##                 A0AZ        A0EW       A0XW        A12B       A0BP         A0RG        A0T7       A08A
## YWHAE     0.44813177  0.24075610 -0.1921050  0.28809052  0.6142197  0.006611735  0.09425692 -0.2893167
## EIF4EBP1 -0.07537384  0.95510271 -0.2249715  0.28751521 -0.3370092 -0.266905610  0.15714997 -0.2902958
## TP53BP1  -0.23187084  0.01356203  0.4909079  0.01666412 -0.1732544  0.235397041 -0.10476700  0.7068535
## ARAF      0.36733354 -0.15248756 -0.2215480 -0.09751097 -0.2412493 -0.169662569 -0.17345254  0.1496799
## ACACA    -0.19927512 -0.62426734  1.1461389  0.40130928  1.0064003  0.062619936  0.39504278  0.6492362
## ACCB     -0.86401722 -0.38855134  0.9585337 -1.12405209  1.0776383  0.405224079 -0.40038358  1.1057882
##                  A0DK       A0SH        A18N       A06P        A15L        A0YL        A1AL         A133
## YWHAE     0.208312992 -0.2146377  0.02057174  0.5320804  0.24446389  0.02441686  0.25962881  0.233985222
## EIF4EBP1  0.006902877 -0.0348712 -0.47094946  0.3974088  0.35611833  0.31565682 -0.47644956  0.001715192
## TP53BP1   0.461756644 -0.2300382  0.33733423 -0.4671832  0.46874689  0.48026692 -0.05283317 -0.539913732
## ARAF     -0.083873409  0.2163685 -0.13868696 -0.1757303 -0.16117601 -0.36611220 -0.45663158 -0.130470151
## ACACA     0.243873461  1.3612271 -0.65434685 -0.0199524  0.06804862 -0.40401486 -0.10943659  0.068201372
## ACCB     -0.609707357  1.5125324 -0.17100515  0.2557449 -0.03833923  0.02396029  0.08630307  0.186355403
##                 A086       A0I8        A0EA       A09A        A0DS        A1B1       A0X0        A1AP
## YWHAE    -0.06022245  0.2593484  0.27887146  0.1501800  0.08160479  0.12138451 -0.1459906  0.06991067
## EIF4EBP1  0.43571413  0.3529033 -0.52845711  0.3721886  0.32026039  0.02523423 -0.2877079 -0.02022466
## TP53BP1  -0.22378107 -0.4190778  0.30041806 -0.3300114  0.21959367 -0.46314039  0.7142044  0.33062720
## ARAF     -0.03175502 -0.1608799 -0.02967306  0.3415218 -0.13344800 -0.23412186 -0.1183153 -0.40823958
## ACACA     0.43090563  1.5458696 -0.13707113  0.4368219 -0.94325459 -0.78851367  0.4255080 -0.67741788
## ACCB      0.96868828  0.8709450  0.18134112  0.4566380 -0.77731483 -0.49408623  0.6665537 -0.74875727
##                  A0W5         A0JF         A1AV        A0RO        A08Z       A0RV        A0DP        A0EX
## YWHAE    -0.068143509 -0.082361654 -0.008565319  0.20073233  0.21562355  0.1174676  0.61208279  0.19225553
## EIF4EBP1 -0.361338800 -0.289923833 -0.359263948 -0.09592371 -0.11602150  0.8533835 -0.24256401  0.16823552
## TP53BP1   0.255844248  0.006400965  0.645392566  0.22659302  0.09092303  0.2852072 -0.48847031 -0.36727570
## ARAF     -0.008508998  0.234631425 -0.218606460 -0.09025331  0.09592512 -0.3121126 -0.09959578 -0.11410952
## ACACA    -0.378758677  0.070230030  0.821756843  0.30810017 -0.42072622 -1.2115732  0.16090718 -0.25781609
## ACCB     -0.601903890  0.324889398  0.884751097  0.83381913 -0.01180335 -0.8640820  0.75451871 -0.05032689
##                A15R          A0FD         A0ES         A0BM       A0EU        A12X        A146        A0CD
## YWHAE    0.15951372 -0.0003992998  0.331390028  0.234077379  0.6602348  0.01399538 -0.12540871 -0.10988943
## EIF4EBP1 1.43036763  0.3021787216  0.777901151 -0.044702482 -0.3887336  2.04807978 -0.12822238 -0.40588993
## TP53BP1  1.19168757  0.7830962010 -0.179800997  0.249263206 -0.4445914  0.46757149  0.18580518 -0.26228104
## ARAF     0.10669297 -0.0353334053 -0.007782728  0.008670462 -0.1844897 -0.43438697  0.53235978  0.08775629
## ACACA    0.43827642  0.1019272573 -0.062342374  0.517704430 -0.4002549  0.39724306  0.06463656  0.59588277
## ACCB     0.03445577 -0.7286720277  0.217673154  0.845228991 -0.4984337  0.43535304  0.28106347  0.73116503
##                 A0BQ        A04A        A0CT       A0TZ        A03L        A1AK       A0E1       A0H7
## YWHAE     0.29664725 -0.10341419 -0.01271869  0.2534825 -0.06255032 -0.00628647  0.4900114  0.6085458
## EIF4EBP1 -0.34952985  0.37093698  0.23785158 -0.3171774  0.02082981 -0.29036200 -0.1878629 -0.4059596
## TP53BP1  -0.35319591  0.58863472 -0.83354244 -0.2604502 -0.20783825  0.01482852 -0.1164977 -0.7563690
## ARAF     -0.03755203 -0.02265695 -0.18495062 -0.1670993  0.05328247 -0.23236417 -0.2357682 -0.2125003
## ACACA     2.09181497 -0.47350147  1.16285497 -0.0904107 -0.16965978  0.66700812 -0.4736231 -1.2983173
## ACCB      1.43110561 -1.05352669  1.22102621 -0.1402257 -0.36904927  0.53386343 -0.5331481 -0.3960725
##                 A0FS        A0BS         A08O        A12H        A15E        A0W4 GO:0000082 GO:0000122
## YWHAE     0.28588916  0.10558917 -0.082599309  0.04428213 -0.08457028 -0.01095410          0          0
## EIF4EBP1 -0.70731155  0.35069685 -0.434463492 -0.45207404 -0.24924165 -0.34544615          1          0
## TP53BP1   0.19350409  0.58851125 -0.113726155  1.16034608  0.58585849  0.44976669          0          0
## ARAF     -0.29306315  0.23146311 -0.005437017 -0.26354606  0.18079844  0.06987084          0          0
## ACACA    -0.31986613  0.68697199 -0.098271102  0.54047479  1.38595816 -0.30662370          0          0
## ACCB     -0.08705945 -0.03232127 -0.373714666  0.69083131  0.95161707 -0.18940735          0          0
##          GO:0000165 GO:0000187 GO:0001525 GO:0001666 GO:0001701 GO:0001934 GO:0006357 GO:0006367 GO:0006468
## YWHAE             1          0          0          0          0          0          0          0          0
## EIF4EBP1          0          0          0          0          0          0          0          0          0
## TP53BP1           0          0          0          0          0          0          0          0          0
## ARAF              1          0          0          0          0          0          0          0          0
## ACACA             0          0          0          0          0          0          0          0          0
## ACCB              0          0          0          0          0          0          0          0          0
##          GO:0006915 GO:0006974 GO:0006977 GO:0007050 GO:0007155 GO:0007165 GO:0007169 GO:0007411 GO:0007507
## YWHAE             0          0          0          0          0          0          0          0          0
## EIF4EBP1          0          0          0          0          0          0          0          0          0
## TP53BP1           0          1          0          0          0          0          0          0          0
## ARAF              0          0          0          0          0          0          0          0          0
## ACACA             0          0          0          0          0          0          0          0          0
## ACCB              0          0          0          0          0          0          0          0          0
##          GO:0007568 GO:0008283 GO:0008284 GO:0008285 GO:0010468 GO:0010628 GO:0010629 GO:0016032 GO:0016579
## YWHAE             0          0          0          0          0          0          0          1          0
## EIF4EBP1          0          0          0          0          0          0          0          0          0
## TP53BP1           0          0          0          0          0          0          0          0          0
## ARAF              0          0          0          0          0          0          0          0          0
## ACACA             0          0          0          0          0          0          0          0          0
## ACCB              0          0          0          0          0          0          0          0          0
##          GO:0018105 GO:0018107 GO:0018108 GO:0019221 GO:0030154 GO:0030335 GO:0032355 GO:0032869 GO:0033138
## YWHAE             0          0          0          0          0          0          0          0          0
## EIF4EBP1          0          0          0          0          0          0          0          0          0
## TP53BP1           0          0          0          0          0          0          0          0          0
## ARAF              0          0          0          0          0          0          0          0          1
## ACACA             0          0          0          0          0          0          0          0          0
## ACCB              0          0          0          0          0          0          0          0          0
##          GO:0033674 GO:0035556 GO:0042060 GO:0042127 GO:0042493 GO:0042981 GO:0043065 GO:0043066 GO:0045471
## YWHAE             0          1          0          0          0          0          0          0          0
## EIF4EBP1          0          0          0          0          0          0          0          0          1
## TP53BP1           0          0          0          0          0          0          0          0          0
## ARAF              0          0          0          0          0          0          0          1          0
## ACACA             0          0          0          0          0          0          0          0          0
## ACCB              0          0          0          0          0          0          0          0          0
##          GO:0045892 GO:0045893 GO:0045944 GO:0046777 GO:0048538 GO:0050821 GO:0051091 GO:0051897 GO:0070374
## YWHAE             0          0          0          0          0          0          0          0          0
## EIF4EBP1          0          0          0          0          0          0          0          0          0
## TP53BP1           0          1          1          0          0          0          1          0          0
## ARAF              0          0          0          0          0          0          0          0          0
## ACACA             0          0          0          0          0          0          0          0          0
## ACCB              0          0          0          0          0          0          0          0          0
##          GO:0071456 GO:0090090 GO:0098609 GO:1901796 GO:2001244
## YWHAE             0          0          0          0          0
## EIF4EBP1          1          0          0          0          0
## TP53BP1           0          0          0          0          0
## ARAF              0          0          0          0          0
## ACACA             0          0          0          0          0
## ACCB              0          0          0          0          0
p <- heatmaply(categ_matrix1, 
        dendrogram = "none",
        xlab = "", ylab = "", 
        main = "",
        scale = "none",
        margins = c(60,100,40,20),
        #grid_color = "white",
        #grid_width = 0,
        titleX = FALSE,
        hide_colorbar = FALSE,
        branches_lwd = 0.1,
        label_names = c("Feature", "Sample", "Value"),
        fontsize_row = 5, fontsize_col = 5,
        labCol = colnames(categ_matrix1),
        labRow = rownames(categ_matrix1),
        heatmap_layers = theme(axis.line=element_blank())
        )
p
# save the widget
# library(htmlwidgets)
# saveWidget(p, file= "~/.../heatmap.html")
p <- heatmaply(categ_matrix2, 
        dendrogram = "none",
        xlab = "", ylab = "", 
        main = "",
        scale = "none",
        margins = c(60,100,40,20),
        #grid_color = "white",
        #grid_width = 0,
        titleX = FALSE,
        hide_colorbar = FALSE,
        branches_lwd = 0.1,
        label_names = c("Feature", "Sample", "Value"),
        fontsize_row = 5, fontsize_col = 5,
        labCol = colnames(categ_matrix2),
        labRow = rownames(categ_matrix2),
        heatmap_layers = theme(axis.line=element_blank())
        )
p
# save the widget
# library(htmlwidgets)
# saveWidget(p, file= "~/.../heatmap.html")

Expanded Matrix

Gene Ontology used: BP

Min. number of genes applied to filter: 8

Annotated categories: 13 (for data/mrna.csv)

Annotated categories: 61 (for data/prots.csv)

Features+Categs in ROWS: 213 (for data/mrna.csv)

Features+Categs in ROWS: 172 (for data/prots.csv)

Samples in COLUMNS: 150 (for data/mrna.csv)

Samples in COLUMNS: 150 (for data/prots.csv)

(Showing only partial output)

tail(tar_read(expd_matrix1), ncol(categ_matrix1))[,1:10]
##                A0FJ     A13E     A0G0     A0SX     A143     A0DA     A0B3     A0I2     A0RT     A131
## GO:0000122 4.975514 5.014288 4.354496 5.287829 4.388574 4.703340 4.484985 4.286980 5.304895 4.229292
## GO:0006357 5.358933 5.651490 5.159456 5.959377 5.084826 5.487008 5.334804 4.629744 6.157912 4.860346
## GO:0007155 6.068514 5.938148 6.008194 6.606449 5.609092 6.493687 5.916768 4.810640 6.464882 6.367359
## GO:0007165 5.190907 5.179589 5.086928 5.896685 4.964933 5.289600 5.163637 4.680029 6.016889 5.066866
## GO:0007411 5.209696 4.911230 5.568726 6.002954 5.247555 5.849531 5.459925 5.097907 6.047126 5.578471
## GO:0008285 4.850748 5.628700 5.559798 6.196543 5.559160 5.732965 6.211823 5.453720 6.361321 5.473759
## GO:0016477 4.467429 5.545002 6.084154 6.342951 6.550521 6.424268 6.163090 5.883238 5.953267 6.052468
## GO:0019221 4.285585 4.339224 4.442392 6.117472 5.362300 5.306170 5.362607 4.732832 6.135399 5.495896
## GO:0030335 4.940894 4.526876 5.186276 5.923001 4.685379 5.340370 5.169725 4.322019 6.290715 5.670467
## GO:0043312 5.256378 4.540444 5.513148 5.530951 5.754397 4.984525 5.557739 4.671278 5.676067 5.320797
## GO:0045893 4.945589 4.911753 4.797016 5.473086 5.192641 4.559235 4.767383 4.574252 5.728552 4.878185
## GO:0045944 5.014163 5.063401 4.732361 5.710688 5.062169 5.162256 4.992962 4.525783 5.880085 4.448502
## GO:0055114 4.507878 4.414600 4.918826 4.932707 4.894436 4.802867 5.135149 4.651579 5.197650 4.748252
tail(tar_read(expd_matrix2), ncol(categ_matrix2))[,1:10]
##                   A0FJ         A13E          A0G0         A0SX          A143         A0DA         A0B3
## GO:0000082  0.08489980  0.336677822  0.1119364371  0.132907983  0.2131787559  0.072103768 -0.068504502
## GO:0000122 -0.27482556 -0.147144823 -0.4183629026 -0.292259414 -0.2973200923 -0.336981518 -0.303081710
## GO:0000165  0.07622744  0.189509183  0.1256605044  0.058991557  0.1196075280  0.097879156 -0.013892155
## GO:0000187 -0.02372494  0.191530915  0.2009855473  0.322285592 -0.0869276571  0.224646972  0.055952842
## GO:0001525  0.13043805 -0.129834380 -0.0921494909  0.268844404 -0.3373306412 -0.017102932  0.103961936
## GO:0001666  0.08944101 -0.140874501 -0.2420583339  0.140057794 -0.1545093549 -0.278546050 -0.113417500
## GO:0001701 -0.08369993 -0.117808693 -0.2400020828 -0.262398372 -0.1063332010 -0.207672715 -0.133492522
## GO:0001934  0.22167378 -0.071793185  0.0059517080 -0.004695533  0.3786330061 -0.026809124 -0.052527039
## GO:0006357 -0.44105207  0.018582923 -0.4456880716 -0.107618121 -0.1794351142 -0.263030185 -0.374797969
## GO:0006367 -0.37807640 -0.217422477 -0.4515217890 -0.382301742 -0.4628282752 -0.402502336 -0.367949199
## GO:0006468  0.04384241 -0.012195461  0.0686075696  0.214935373  0.0561904289 -0.013535358  0.057968525
## GO:0006915  0.12761670 -0.026639992 -0.1342128706  0.210012976 -0.0324969741 -0.062760267  0.096802353
## GO:0006974  0.18917421 -0.033450403  0.1404693246  0.055255983 -0.1910492830  0.008739606 -0.088563139
## GO:0006977  0.33058430  0.274551206  0.2575656626  0.360402894  0.3617389207 -0.084608669  0.226450933
## GO:0007050  0.03441458  0.292665738  0.0556843231  0.291426874  0.1417121906  0.177136263 -0.089662383
## GO:0007155 -0.06441327  0.006709432 -0.0339015759 -0.159775692 -0.0679366169  0.150489660  0.050141009
## GO:0007165 -0.27900782 -0.266694235 -0.1644668807 -0.110421310 -0.2506492541 -0.263054266 -0.213616888
## GO:0007169  0.07685028  0.523227325  0.5631833767  0.365590109  0.1999179038  0.113374476  0.144637781
## GO:0007411 -0.09898379  0.331088481  0.3261074003 -0.064801905 -0.1738483420 -0.147993794 -0.052762993
## GO:0007507 -0.02032936  0.111431770 -0.0285711480  0.158872521  0.0991334224  0.118190996 -0.053946512
## GO:0007568  0.07790115 -0.420646638  0.1032335058 -0.001736004  0.0086647605 -0.102973234  0.130023670
## GO:0008283  0.03679451 -0.144167148  0.0255178996 -0.111399009  0.0840318788 -0.052401503 -0.054567387
## GO:0008284  0.08482870  0.257111457  0.0005207242  0.197894491 -0.0236297526  0.022160249 -0.139557160
## GO:0008285 -0.11138998 -0.166885018 -0.1626436833 -0.211962199 -0.1376858891 -0.105234086 -0.083477210
## GO:0010468  0.01125860 -0.153391521 -0.2176228032 -0.007971024 -0.4203021508 -0.054905609 -0.158522803
## GO:0010628 -0.00122858 -0.098698107 -0.1055718003  0.066310240 -0.1366106255  0.080458342  0.018513881
## GO:0010629 -0.23619110 -0.028785330 -0.3892505117 -0.223956091 -0.3021354399 -0.240027932 -0.314514847
## GO:0016032 -0.07457173 -0.010786512  0.0914214747  0.048616664  0.0438110215  0.009434538  0.085763679
## GO:0016579 -0.48380275 -0.365095246 -0.6127620199 -0.333712327 -0.6224947667 -0.506192428 -0.509350271
## GO:0018105  0.06317664 -0.117787592 -0.0358040097  0.247075359 -0.0503240522 -0.033782045  0.020603497
## GO:0018107  0.16622397 -0.052166874 -0.1429365756  0.216677404 -0.1240914732  0.003439253 -0.030552842
## GO:0018108  0.03007974  0.268677229  0.1898227851  0.418797935  0.1536240352  0.089635663  0.070612284
## GO:0019221 -0.06805777  0.173421854 -0.0334762431  0.172616196 -0.4219052089  0.208626430 -0.053418367
## GO:0030154  0.06266369 -0.017867445 -0.0586608115  0.202329129  0.3572727979 -0.055773142  0.053221328
## GO:0030335  0.07092124  0.345829604 -0.1007203072  0.418595430  0.1003942279 -0.064002287 -0.046307407
## GO:0032355 -0.34406908 -0.446365697 -0.1666957447 -0.529643452 -0.6018513487 -0.370357956 -0.176669913
## GO:0032869  0.24803647 -0.180192879 -0.0891644310  0.224420710  0.1584007938  0.029553808 -0.094077909
## GO:0033138  0.36210715 -0.283654291 -0.5135656042  0.095601671  0.2240143146 -0.249247057 -0.113025631
## GO:0033674  0.05309816  0.366930337  0.1290877119  0.185115483  0.1810435065  0.034244876 -0.054679902
## GO:0035556 -0.04198901 -0.065201822 -0.0669765327 -0.043429659  0.0104424180 -0.005881260 -0.005732390
## GO:0042060  0.05087015  0.006398232 -0.0453615084  0.004516628  0.4749383469  0.133403389  0.116512312
## GO:0042127 -0.06461140  0.352299355  0.3414221430  0.629645793 -0.2558531062  0.306249681  0.211734108
## GO:0042493  0.10065786 -0.100860898  0.0719475904 -0.068457753 -0.1113006377 -0.067164409  0.033306198
## GO:0042981 -0.38891545 -0.314969068 -0.4301307672 -0.186592306 -0.3627193499 -0.306987364 -0.281375077
## GO:0043065 -0.06841879 -0.177206068 -0.0437627994 -0.095497340 -0.0089997349  0.064977860 -0.013941429
## GO:0043066  0.17748119  0.084221187  0.0446931651  0.087754375  0.0674620117  0.083559240  0.067011469
## GO:0045471 -0.20824125 -0.132666688 -0.1576763043 -0.182859533 -0.2209665652 -0.224879055 -0.210035331
## GO:0045892 -0.07322803  0.196502210  0.0960542524 -0.179838876  0.1453523156  0.098838332 -0.041347811
## GO:0045893 -0.17324920 -0.177955202 -0.1334929204 -0.271777012 -0.0048038792 -0.177876574 -0.229429223
## GO:0045944 -0.19587062 -0.084388027 -0.1659883857 -0.138425902 -0.0438597330 -0.109792850 -0.201003823
## GO:0046777  0.21686266  0.226945389  0.2381816961  0.228248405  0.4362714716  0.093550313 -0.070238041
## GO:0048538 -0.09674308 -0.440442887 -0.3333299382 -0.136174964 -0.4601796000 -0.262351567 -0.253322272
## GO:0050821  0.26731790 -0.077598349 -0.0925007853  0.064325005 -0.0006906611  0.101583260  0.106955886
## GO:0051091 -0.31695970 -0.073274211 -0.3805173383 -0.425677409 -0.5235161696 -0.167380867 -0.533008205
## GO:0051897 -0.44175817 -0.119354152 -0.3978241519 -0.221571036 -0.2969110597 -0.383017751 -0.432640394
## GO:0070374  0.29051323  0.317418294  0.1340562890  0.169023275  0.6261227595  0.125945184 -0.013929233
## GO:0071456  0.41857396  0.092164299  0.0413925417  0.164705551  0.0884956352  0.061850564 -0.006914923
## GO:0090090  0.09997505 -0.334316780 -0.3138133989 -0.005110155 -0.2443231857 -0.274596166  0.070849130
## GO:0098609  0.21100026 -0.098915205  0.1107148763 -0.116176166  0.2025518820 -0.012399848 -0.044674092
## GO:1901796  0.05604931 -0.090767252  0.0890972070  0.199254450 -0.0493431138 -0.020527543  0.017352554
## GO:2001244  0.21073007 -0.231262473 -0.6335138888  0.361176457 -0.5217544145 -0.369090924 -0.136999785
##                    A0I2         A0RT        A131
## GO:0000082 -0.125391936 -0.161820189  0.23957269
## GO:0000122  0.081784783 -0.239038467 -0.36224258
## GO:0000165  0.027595439 -0.029645858 -0.36483277
## GO:0000187 -0.268002681  0.142607624 -0.35799969
## GO:0001525 -0.328553922 -0.025787565  0.23691499
## GO:0001666  0.246881436  0.246629149 -0.22473209
## GO:0001701 -0.298145977 -0.306373487 -0.21501843
## GO:0001934 -0.346490913 -0.255766968 -0.39353994
## GO:0006357  0.032897991 -0.259564113 -0.67531598
## GO:0006367 -0.240971180 -0.398006493 -0.15176589
## GO:0006468 -0.211325727  0.007983592 -0.60685163
## GO:0006915 -0.317444803  0.136110344 -0.13971037
## GO:0006974 -0.159378236  0.079552141 -0.57843899
## GO:0006977 -0.391291764  0.312812913  0.09212187
## GO:0007050 -0.113326760  0.007791567 -0.10281993
## GO:0007155 -0.093214085 -0.252257085  0.00852269
## GO:0007165 -0.218285751 -0.229639028 -0.53656968
## GO:0007169 -0.160250553  0.067570476 -0.23756360
## GO:0007411 -0.170835747 -0.098899817 -0.72226396
## GO:0007507 -0.255764166 -0.103854155 -0.35254421
## GO:0007568 -0.150830562 -0.202511824 -0.45841076
## GO:0008283  0.097495236 -0.004358259 -0.06732779
## GO:0008284 -0.125016466 -0.226900419 -0.06898440
## GO:0008285  0.163939325 -0.048910153 -0.31794414
## GO:0010468 -0.265980044 -0.187920629 -0.75083080
## GO:0010628  0.173559414  0.062879244 -0.28377954
## GO:0010629 -0.396349235 -0.467798649 -0.27893734
## GO:0016032 -0.260108131 -0.087787704 -0.21436374
## GO:0016579 -0.323265101 -0.486255717 -0.42974428
## GO:0018105 -0.294028926  0.067341087 -0.68707382
## GO:0018107 -0.042974036 -0.006231209 -0.67269743
## GO:0018108  0.023615761  0.101220367 -0.13444861
## GO:0019221  0.138340567  0.044939310 -0.29418614
## GO:0030154  0.248498551  0.250533454 -0.20917066
## GO:0030335  0.313517749  0.257132127 -0.24770795
## GO:0032355 -0.044365057 -0.420032076 -0.25240814
## GO:0032869 -0.233747963 -0.250615714 -0.47894364
## GO:0033138  0.115572615  0.046099741 -0.59572887
## GO:0033674 -0.021417657 -0.169851605 -0.25373946
## GO:0035556 -0.059267969 -0.139128427 -0.36169265
## GO:0042060 -0.109966263 -0.238864014 -0.21970976
## GO:0042127  0.653638121  0.541574467 -0.27450835
## GO:0042493 -0.058295005 -0.078446529 -0.09316189
## GO:0042981 -0.394923079 -0.166283152 -0.66461506
## GO:0043065 -0.006645506  0.056054697 -0.22309188
## GO:0043066 -0.172260875 -0.100020562 -0.10712605
## GO:0045471 -0.039678314 -0.299137392  0.03631910
## GO:0045892 -0.630767426 -0.181834594 -0.17423982
## GO:0045893 -0.335724689 -0.333977504 -0.55520667
## GO:0045944 -0.222507828 -0.295453313 -0.40781694
## GO:0046777 -0.466237174 -0.165791129 -0.67759245
## GO:0048538 -0.454385092 -0.071885817 -1.20853025
## GO:0050821  0.182384560  0.128432277  0.17005550
## GO:0051091 -0.571744522 -0.616670682 -0.91570854
## GO:0051897 -0.102753198 -0.207344043 -0.54844997
## GO:0070374 -0.206402929 -0.181911137 -0.12610806
## GO:0071456 -0.175937995 -0.083911684 -0.06652142
## GO:0090090  0.265606556  0.002042005  0.19447471
## GO:0098609 -0.180458441 -0.080533321 -0.08233294
## GO:1901796 -0.261139277  0.144311727 -0.28546584
## GO:2001244  0.365409589  0.580861045  0.04548789

Heatmap (after row expansion)

Features+Categs in ROWS; Samples in COLUMNS

p <- heatmaply(expd_matrix1, 
        #dendrogram = "row",
        xlab = "", ylab = "", 
        main = "",
        scale = "none",
        margins = c(60,100,40,20),
        #grid_color = "white",
        #grid_width = 0,
        titleX = FALSE,
        hide_colorbar = FALSE,
        branches_lwd = 0.1,
        label_names = c("Feature", "Sample", "Value"),
        fontsize_row = 5, fontsize_col = 5,
        labCol = colnames(expd_matrix1),
        labRow = rownames(expd_matrix1),
        heatmap_layers = theme(axis.line=element_blank())
        )
p
# save the widget
# library(htmlwidgets)
# saveWidget(p, file= "~/.../heatmap.html")
p <- heatmaply(expd_matrix2, 
        #dendrogram = "row",
        xlab = "", ylab = "", 
        main = "",
        scale = "none",
        margins = c(60,100,40,20),
        #grid_color = "white",
        #grid_width = 0,
        titleX = FALSE,
        hide_colorbar = FALSE,
        branches_lwd = 0.1,
        label_names = c("Feature", "Sample", "Value"),
        fontsize_row = 5, fontsize_col = 5,
        labCol = colnames(expd_matrix2),
        labRow = rownames(expd_matrix2),
        heatmap_layers = theme(axis.line=element_blank())
        )
p
# save the widget
# library(htmlwidgets)
# saveWidget(p, file= "~/.../heatmap.html")